Bioinformatic tools for microRNA dissection

Most Mauluda Akhtar, Luigina Micolucci, Md Soriful Islam, Fabiola Olivieri, Antonio Domenico Procopio

Research output: Contribution to journalArticle

87 Citations (Scopus)

Abstract

Recently, microRNAs (miRNAs) have emerged as important elements of gene regulatory networks. MiRNAs are endogenous single-stranded non-coding RNAs (∼22-nt long) that regulate gene expression at the post-transcriptional level. Through pairing with mRNA, miRNAs can down-regulate gene expression by inhibiting translation or stimulating mRNA degradation. In some cases they can also up-regulate the expression of a target gene. MiRNAs influence a variety of cellular pathways that range from development to carcinogenesis. The involvement of miRNAs in several human diseases, particularly cancer, makes them potential diagnostic and prognostic biomarkers. Recent technological advances, especially high-throughput sequencing, have led to an exponential growth in the generation of miRNA-related data. A number of bioinformatic tools and databases have been devised to manage this growing body of data. We analyze 129 miRNA tools that are being used in diverse areas of miRNA research, to assist investigators in choosing the most appropriate tools for their needs.

Original languageEnglish
Pages (from-to)24-44
Number of pages21
JournalNucleic Acids Research
Volume44
Issue number1
DOIs
Publication statusPublished - Jan 8 2016

Fingerprint

Computational Biology
MicroRNAs
Dissection
Gene Expression
Untranslated RNA
Gene Regulatory Networks
RNA Stability
Carcinogenesis
Up-Regulation
Down-Regulation
Biomarkers
Research Personnel
Databases
Messenger RNA
Growth
Research
Genes
Neoplasms

ASJC Scopus subject areas

  • Genetics

Cite this

Bioinformatic tools for microRNA dissection. / Akhtar, Most Mauluda; Micolucci, Luigina; Islam, Md Soriful; Olivieri, Fabiola; Procopio, Antonio Domenico.

In: Nucleic Acids Research, Vol. 44, No. 1, 08.01.2016, p. 24-44.

Research output: Contribution to journalArticle

Akhtar, Most Mauluda ; Micolucci, Luigina ; Islam, Md Soriful ; Olivieri, Fabiola ; Procopio, Antonio Domenico. / Bioinformatic tools for microRNA dissection. In: Nucleic Acids Research. 2016 ; Vol. 44, No. 1. pp. 24-44.
@article{a880021f660e4952a3ba497690ee9e0d,
title = "Bioinformatic tools for microRNA dissection",
abstract = "Recently, microRNAs (miRNAs) have emerged as important elements of gene regulatory networks. MiRNAs are endogenous single-stranded non-coding RNAs (∼22-nt long) that regulate gene expression at the post-transcriptional level. Through pairing with mRNA, miRNAs can down-regulate gene expression by inhibiting translation or stimulating mRNA degradation. In some cases they can also up-regulate the expression of a target gene. MiRNAs influence a variety of cellular pathways that range from development to carcinogenesis. The involvement of miRNAs in several human diseases, particularly cancer, makes them potential diagnostic and prognostic biomarkers. Recent technological advances, especially high-throughput sequencing, have led to an exponential growth in the generation of miRNA-related data. A number of bioinformatic tools and databases have been devised to manage this growing body of data. We analyze 129 miRNA tools that are being used in diverse areas of miRNA research, to assist investigators in choosing the most appropriate tools for their needs.",
author = "Akhtar, {Most Mauluda} and Luigina Micolucci and Islam, {Md Soriful} and Fabiola Olivieri and Procopio, {Antonio Domenico}",
year = "2016",
month = "1",
day = "8",
doi = "10.1093/nar/gkv1221",
language = "English",
volume = "44",
pages = "24--44",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = ". This work is written by (a) US Government employee(s) and is in the public domain in the US",
number = "1",

}

TY - JOUR

T1 - Bioinformatic tools for microRNA dissection

AU - Akhtar, Most Mauluda

AU - Micolucci, Luigina

AU - Islam, Md Soriful

AU - Olivieri, Fabiola

AU - Procopio, Antonio Domenico

PY - 2016/1/8

Y1 - 2016/1/8

N2 - Recently, microRNAs (miRNAs) have emerged as important elements of gene regulatory networks. MiRNAs are endogenous single-stranded non-coding RNAs (∼22-nt long) that regulate gene expression at the post-transcriptional level. Through pairing with mRNA, miRNAs can down-regulate gene expression by inhibiting translation or stimulating mRNA degradation. In some cases they can also up-regulate the expression of a target gene. MiRNAs influence a variety of cellular pathways that range from development to carcinogenesis. The involvement of miRNAs in several human diseases, particularly cancer, makes them potential diagnostic and prognostic biomarkers. Recent technological advances, especially high-throughput sequencing, have led to an exponential growth in the generation of miRNA-related data. A number of bioinformatic tools and databases have been devised to manage this growing body of data. We analyze 129 miRNA tools that are being used in diverse areas of miRNA research, to assist investigators in choosing the most appropriate tools for their needs.

AB - Recently, microRNAs (miRNAs) have emerged as important elements of gene regulatory networks. MiRNAs are endogenous single-stranded non-coding RNAs (∼22-nt long) that regulate gene expression at the post-transcriptional level. Through pairing with mRNA, miRNAs can down-regulate gene expression by inhibiting translation or stimulating mRNA degradation. In some cases they can also up-regulate the expression of a target gene. MiRNAs influence a variety of cellular pathways that range from development to carcinogenesis. The involvement of miRNAs in several human diseases, particularly cancer, makes them potential diagnostic and prognostic biomarkers. Recent technological advances, especially high-throughput sequencing, have led to an exponential growth in the generation of miRNA-related data. A number of bioinformatic tools and databases have been devised to manage this growing body of data. We analyze 129 miRNA tools that are being used in diverse areas of miRNA research, to assist investigators in choosing the most appropriate tools for their needs.

UR - http://www.scopus.com/inward/record.url?scp=84959432395&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84959432395&partnerID=8YFLogxK

U2 - 10.1093/nar/gkv1221

DO - 10.1093/nar/gkv1221

M3 - Article

AN - SCOPUS:84959432395

VL - 44

SP - 24

EP - 44

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 1

ER -